Home LiteratureArticle Details
PMID: 2408010 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

New photoactivatable structural and affinity probes of RNAs: specific features and applications for mapping of spermine binding sites in yeast tRNA(Asp) and interaction of this tRNA with yeast aspartyl-tRNA synthetase.

Nucleic acids research ·Vol. 18 ·No. 1 ·1990-01-11 ·Pages 89-95

Garcia A, Giegé R, Behr JP

Abstract

Aryldiazonium salts are shown to be useful as phototriggered structural probes for RNA mapping as well as for footprinting of RNA/protein interaction. In particular the yeast tRNA(Asp)/aspartyl-tRNA synthetase complex is shown to involve the variable loop face and the concave side of the L-shaped nucleic acid bound to a lipophilic area of the enzyme. When chemically linked to spermine, the photoactive group cleaves RNA at polyamine binding sites; 3-4 spermines have been located in the tRNA(Asp), stabilizing the central part of the molecule in regions where two ribose-phosphate strands are close to each other.

MeSH Terms
Affinity Labels Amino Acyl-tRNA Synthetases/metabolism Aspartate-tRNA Ligase/metabolism Binding Sites In Vitro Techniques Nucleic Acid Conformation Photochemistry RNA, Transfer, Amino Acid-Specific/metabolism RNA, Transfer, Asp/metabolism,ultrastructure Saccharomyces cerevisiae Spermine/metabolism
Chemicals
Affinity Labels RNA, Transfer, Amino Acid-Specific RNA, Transfer, Asp Spermine Amino Acyl-tRNA Synthetases Aspartate-tRNA Ligase
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Garcia A
Laboratoire de Biochimie, Institut de Biologie Moléculaire et Cellulaire du CNRS, Strasbourg, France.
Giegé R
Behr J P
References (31)
31 references, click to expand
  1. Nuclear magnetic resonance studies of polyamine binding to a defined DNA sequence.
    J Mol Biol. 1985 Sep 20;185(2):457-9 PMID: 4057253
  2. Importance of conserved residues for the conformation of the T-loop in tRNAs.
    J Biomol Struct Dyn. 1987 Dec;5(3):669-87 PMID: 3078237
  3. Studies on tRNA nucleotidyltransferase from baker's yeast. 1. Purification of the enzyme. Protection against thermal inactivation and inhibition by several substrates.
    Eur J Biochem. 1974 Dec 16;50(1):281-8 PMID: 4615903
  4. Binding of transfer RNA to polyamines in preference to Mg-2+.
    Biochem Biophys Res Commun. 1975 Apr 7;63(3):611-7 PMID: 1093544
  5. Influence of various factors on the recognition specificity of tRNAs by yeast valyl-tRNA synthetase.
    Eur J Biochem. 1975 Oct 1;58(1):193-201 PMID: 241632
  6. Effects of polyamines on the structure and reactivity of tRNA.
    Prog Nucleic Acid Res Mol Biol. 1976;17:15-42 PMID: 180567
  7. All oxygens in nucleic acids react with carcinogenic ethylating agents.
    Nature. 1976 Nov 25;264(5584):333-9 PMID: 1004554
  8. A new method for sequencing DNA.
    Proc Natl Acad Sci U S A. 1977 Feb;74(2):560-4 PMID: 265521
  9. The use of nuclease P1 in sequence analysis of end group labeled RNA.
    Nucleic Acids Res. 1977 Dec;4(12):4091-108 PMID: 202925
  10. Structural analysis of spermine and magnesium ion binding to yeast phenylalanine transfer RNA.
    Proc Natl Acad Sci U S A. 1978 Jan;75(1):64-8 PMID: 343112
  11. Photolytic inhibition and labeling of proteins with aryl diazonium compounds.
    Int J Pept Protein Res. 1978 Sep;12(3):143-54 PMID: 29842
  12. Direct chemical method for sequencing RNA.
    Proc Natl Acad Sci U S A. 1979 Apr;76(4):1760-4 PMID: 377283
  13. Contacts between Escherichia coli RNA polymerase and an early promoter of phage T7.
    Proc Natl Acad Sci U S A. 1980 Jan;77(1):122-6 PMID: 6987648
  14. Crystal structure of yeast tRNAAsp.
    Nature. 1980 Dec 25;288(5792):669-74 PMID: 7005687
  15. Specific photoaffinity labeling induced by energy transfer: application to irreversible inhibition of acetylcholinesterase.
    Proc Natl Acad Sci U S A. 1980 Nov;77(11):6439-42 PMID: 6935657
  16. Partial digestion of tRNA--aminoacyl-tRNA synthetase complexes with cobra venom ribonuclease.
    Biochemistry. 1981 Feb 17;20(4):1006-11 PMID: 7011369
  17. Formation of a catalytically active complex between tRNAAsp and aspartyl-tRNA synthetase from yeast in high concentrations of ammonium sulphate.
    Biochimie. 1982 May;64(5):357-62 PMID: 7049254
  18. Mapping of single-stranded regions in duplex DNA at the sequence level: single-strand-specific cytosine methylation in RNA polymerase-promoter complexes.
    Proc Natl Acad Sci U S A. 1983 May;80(9):2544-8 PMID: 6573669
  19. Large scale purification and structural properties of yeast aspartyl-tRNA synthetase.
    Biochem Biophys Res Commun. 1983 Nov 30;117(1):259-67 PMID: 6362667
  20. Crystallographic refinement of yeast aspartic acid transfer RNA.
    J Mol Biol. 1985 Jul 5;184(1):119-45 PMID: 3897553
  21. Ethylation interference and X-ray crystallography identify similar interactions between 434 repressor and operator.
    Nature. 1985 Aug 15-21;316(6029):651-3 PMID: 4033762
  22. Yeast tRNAAsp tertiary structure in solution and areas of interaction of the tRNA with aspartyl-tRNA synthetase. A comparative study of the yeast phenylalanine system by phosphate alkylation experiments with ethylnitrosourea.
    J Mol Biol. 1985 Aug 5;184(3):455-71 PMID: 3900415
  23. Association constants for the interaction of double-stranded and single-stranded DNA with spermine, spermidine, putrescine, diaminopropane, N1- and N8-acetylspermidine, and magnesium: determination from analysis of the broadening of thermal denaturation curves.
    Arch Biochem Biophys. 1986 Apr;246(1):225-32 PMID: 3963822
  24. Spermine-nucleic acid interactions: a theoretical study.
    Biopolymers. 1986 Mar;25(3):375-92 PMID: 3634631
  25. Comparison of the tertiary structure of yeast tRNA(Asp) and tRNA(Phe) in solution. Chemical modification study of the bases.
    J Mol Biol. 1987 May 5;195(1):193-204 PMID: 3309332
  26. Probing the structure of RNAs in solution.
    Nucleic Acids Res. 1987 Nov 25;15(22):9109-28 PMID: 2446263
  27. Tertiary structure of Escherichia coli tRNA(3Thr) in solution and interaction of this tRNA with the cognate threonyl-tRNA synthetase.
    Eur J Biochem. 1988 Aug 15;175(3):511-24 PMID: 2457500
  28. A high resolution diffracting crystal form of the complex between yeast tRNAAsp and aspartyl-tRNA synthetase.
    J Mol Biol. 1988 May 5;201(1):235-6 PMID: 3047397
  29. Base only binding of spermine in the deep groove of the A-DNA octamer d(GTGTACAC).
    Biochemistry. 1989 Mar 21;28(6):2360-4 PMID: 2730868
  30. Yeast tRNA(Asp)-aspartyl-tRNA synthetase complex: low resolution crystal structure.
    J Biomol Struct Dyn. 1987 Oct;5(2):187-98 PMID: 3078234
  31. [Fractionation of Brewer's yeast t-RNA by countercurrent distribution].
    Bull Soc Chim Biol (Paris). 1967;49(12):1679-87 PMID: 5582428
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/18.1.89
Published
1990-01-11
Pages
89-95
Language
English
Region
England
NLM ID
0411011
PMCID
PMC330207
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/18.1.89 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2